Re: [Bioc-devel] Incorrect order of installing dependencies on OS X in bioc-devel in travis

2017-03-23 Thread Hervé Pagès
Hi Alexey, Based on the Travis build report, it looks like Travis used install.packages() to install reactome.db. What makes you think it used biocLite()? The problem seems to be related to the fact that reactome.db deps are divided in 2 groups: binary packages on one side and source packages

[Bioc-devel] Incorrect order of installing dependencies on OS X in bioc-devel in travis

2017-03-23 Thread Alexey Sergushichev
Hello all, I'm using travis for checking my project build and found something that looks like a bug in how biocLite installs package dependencies. It appears that at some point biocLite started to install them in an alphabet order, not topological, and specifically on OS X. I've made a small